It still applies. Both of those shows were deliberately designed to be morally ambiguous at points.Oh, of course everything you said is very true in real life, when talking about "good guy terrorists" I was only talking about in fiction like DS9 and BSG.
Part of Kira's backstory is that she's not a "good guy". She's ruthless, motivated by things like hatred and revenge, and is willing to contemplate and follow through on things that most other characters wouldn't.
Remember that "good guy" and "protagonist" are not the same thing. Conversely, just because someone is labelled as a terrorist by the enemy, doesn't make it so; and not everyone that styles themselves as "freedom fighter" truly is one. One must separate propaganda from reality.
It's the difference between car bombing a puppet government official that's collaborating with an occupying force, and making sure his kids aren't in the car at the time too.
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